Table 5.

PANTHER overrepresentation test of GO cellular components using tomato and Arabidopsis homologs inferred from N. benthamiana NSs-interacting proteins. A total of 34,637 proteins (GO Ontology database, doi:10.5281/zenodo.4033054) were included in the tomato reference list. All other parameters are the same as those in Table 3.

GO Cellular Component Complete	Tomato Reference #	NSs-Interacting Proteins
		#	Expected	Fold Enrichment	+/−	p Value
Lysosome	49	3	0.06	50.49	+	1.71 × 10−2
Lytic vacuole	52	3	0.06	47.58	+	2.02 × 10−2
Intracellular membrane-bounded organelle	5532	18	6.71	2.68	+	1.61 × 10−2
Membrane-bounded organelle	5782	19	7.01	2.71	+	7.25 × 10−3
Organelle	6262	19	7.59	2.50	+	2.30 × 10−2
Cellular anatomical entity	9174	26	11.12	2.34	+	7.57 × 10−4
Intracellular organelle	6130	19	7.43	2.56	+	1.70 × 10−2
Intracellular	7723	25	9.36	2.67	+	1.09 × 10−4
Cytoplasm	5053	21	6.13	3.43	+	3.26 × 10−5
Extracellular space	62	3	0.08	39.90	+	3.34 × 10−2
Unclassified	25,226	16	30.59	0.52	−	0.00
GO Cellular Component Complete	Arabidopsis Reference #	NSs-Interacting Proteins
		#	Expected	Fold Enrichment	+/−	p Value
Lysosome	46	3	0.07	42.57	+	3.98 × 10−2
Vacuole	1084	10	1.66	6.02	+	3.03 × 10−3
Cytoplasm	14,776	38	22.64	1.68	+	3.25 × 10−4
Chloroplast stroma	718	8	1.10	7.27	+	8.34 × 10−3
Plastid stroma	730	8	1.12	7.15	+	9.39 × 10−3
Whole membrane	830	8	1.27	6.29	+	2.33 × 10−2
Membrane	5495	22	8.42	2.61	+	2.28 × 10−3
Bounding membrane of organelle	921	8	1.41	5.67	+	4.82 × 10−2
Cytosol	3242	22	4.97	4.43	+	1.35 × 10−7
Plasma membrane	3529	18	5.41	3.33	+	1.05 × 10−3
Cell periphery	4001	19	6.13	3.10	+	1.35 × 10−3
Unclassified	1877	1	2.88	0.35	−	0.00

Tomato reference #: number of proteins that are classified in the category out of 34,637 Solanum lycopersicum reference proteins. All other column descriptions are the same as those in Table 3.